From 9fd9d3fc9613f29b95f9d63abb3ab17ad7018029 Mon Sep 17 00:00:00 2001 From: mvheetve Date: Thu, 28 Mar 2024 14:20:10 +0100 Subject: [PATCH] relative links --- docs/output.md | 8 ++++---- 1 file changed, 4 insertions(+), 4 deletions(-) diff --git a/docs/output.md b/docs/output.md index 45d135c4..10a91848 100644 --- a/docs/output.md +++ b/docs/output.md @@ -10,10 +10,10 @@ The files and directories listed below will be created in the results directory The pipeline is built using [Nextflow](https://www.nextflow.io/) and processes data using the following steps: -- [SV calling](https://github.com/nf-cmgg/structural/blob/dev/subworkflows/local/bam_sv_calling/main.nf) - Merged set of structural variant (SV) calls for the selected SV callers -- [CNV calling](https://github.com/nf-cmgg/structural/blob/dev/subworkflows/local/bam_cnv_calling/main.nf) - Merged set of copy number variant (CNV) calls for the selected CNV callers -- [RRE calling](https://github.com/Illumina/ExpansionHunter) - Merged set of repeat region expansions (RRE) calls for the selected RRE callers -- [SV annotation](https://github.com/nf-cmgg/structural/blob/dev/subworkflows/local/bam_sv_calling/main.nf) - Annotated set of structural variant (SV) calls for the selected SV callers +- [SV calling](#sv-calling) - Merged set of structural variant (SV) calls for the selected SV callers +- [CNV calling](#cnv-calling) - Merged set of copy number variant (CNV) calls for the selected CNV callers +- [RRE calling](#rre-calling) - Merged set of repeat region expansions (RRE) calls for the selected RRE callers +- [SV annotation](#sv-annotation) - Annotated set of structural variant (SV) calls for the selected SV callers - [MultiQC](#multiqc) - Aggregate report describing results and QC from the whole pipeline - [Pipeline information](#pipeline-information) - Report metrics generated during the workflow execution